I am pretty overwhelmed with structuring a pipeline for my fluorescence quantification in my tumor microarray images. For each tumor core(tissue) I have DAPI and a FITC image. I have about 400 images each (DAPI & FITC) and am not sure if I need to overlay my DAPI and FITC images for fluorescence quantification.
I tried to set up a module where I guessed it should look something like Loadimages|correctilluminationcalculate|correctilluminationapply|indetifyprimaryobjects|measureobjectintensity etc. However I have no idea what values to put in ‘module settings’. For example, for identifyprimaryobjects, I’m required to provide input image and values like threshold strategy? Is there anyone who can walk me through it? If anyone with experience from New Orleans can contact me, I’m willing to pay $30/hour as mentoring fee, if not, I’m willing to try an online mentor and we can work something out.
Thanks in advance!